In the text field you can enter multiple search patterns. Different patterns are separated by newlines or commas.
'?' is treated as single letter wildcard
'#' is an end-of-line comment
Text written behind # will not be used for search. Instead this text will be displayed in the message window when you position your cursor on a found pattern.
Mark species with matches
Marks all species that match any of the current search patterns (does not change marks of any other species).
Jumps to the last/next occurrence of any of the given patterns. You can repeat your last search by pressing <CTRL-S> while focus is inside sequence view.
In the extended top-area of ARB_EDIT4 there are global NEXT/LAST buttons. They jump to the next match of ANY of all 9 pattern types.
If checked, the found parts are shown in different background colors (defined at Properties/Data Search)
See NOTES below for overlap priority.
If checked, the Last/Next-Button will open folded groups, to jump to the next occurrence. Otherwise search will jump over folded groups.
If checked, the cursor will automatically jump to the nearest occurrence, if you change the search pattern or other search parameters.
Ignore gaps in sequence?
If checked, gaps in sequence will be ignored. (ACGU will find A-CG-U, AC---GU, ...)
Ignore gaps in pattern?
If checked, gaps in the search pattern will be ignored. (A-CG-U, AC---GU, ... will find ACGU)
Treat T and U as match?
If checked, T and U will be treated as equal. (ACGU will find ACGT and vice versa)
If checked, a and A, c and C, ... are treated as equal (aCGu will find ACGU, AcgU, acgu, ...)
Search for complement?
If checked, search will go as well for complemented patterns.
Search for reverse?
If checked, search will go as well for reversed patterns.
If checked, search will only go for the given combination of 'complement' and 'reverse'.
Example: If 'Exact', 'complement' and 'reverse' are checked,
search will go only for complemented AND reversed
Defines the minimum and maximum allowed number of non-matching base characters.